3np4

C112D/M121E Pseudomonas aeruginosa Azurin

Method: X-RAY DIFFRACTION Dmax: 48.0 Å Quality: GOOD

1. Protein Identity and Related Structures Protein Identity & Related Structures

Azurin

Pseudomonas aeruginosa

UniProt P00282

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 21–148 Fragment:UNP residues 21-148 Mutation:C112D, M121E CU COPPER (II) ION × 2 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;25-30% PEG 4000 100 mM LiNO3 20 mM CuCl2 100 mM Tris pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 2.25 Å R-free 0.276

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

110 other PDB entries and 270 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name AZUR_PSEAE
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–128; UniProt 21–148

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 3np4

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 3np4
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2. Structure Basics 2. Structure Basics

Entry ID entry_id3np4
Deposition date deposition_date2010-06-27
Structure title titleC112D/M121E Pseudomonas aeruginosa Azurin
Keywords keywordsCupredoxin, azurin, ELECTRON TRANSPORT; ELECTRON TRANSPORT
Experimental Method methodX-RAY DIFFRACTION

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier15.09
Radius of gyration Rg (electron density) rg_electron13.92
Forward intensity I(0) i04285670.00
Molecular weight molecular_weight14183.0 kDa
Excluded volume excluded_volume17465 ų
Envelope volume envelope_volume19304 ų
Hydration-shell volume shell_volume11897 ų
Envelope diameter envelope_diameter46.6
Shell Rg shell_rg19.57
Envelope Rg envelope_rg14.23
Shape Rg shape_rg13.83
Total Rg total_rg15.23
Total atoms total_atoms986
Residues n_residues128
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax48.0
Rg (real space) rg_real15.01
Rg uncertainty (real space) rg_real_error0.30
I(0) (real space) i0_real4.2860e+06
I(0) uncertainty (real space) i0_real_error4.9010e+04
Rg (reciprocal space) rg_reciprocal15.02
I(0) (reciprocal space) i0_reciprocal4286000.0000
Solution quality estimate total_estimate0.8984
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary17.6
Skewness Skewness skewness0.171
Kurtosis Kurtosis kurtosis-0.435
Angular range angular_range— – 0.5000 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha758200.0000
Real-space data points n_real_points80
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.902; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.973

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd3np4a_
Class classb — All beta proteins
Fold Fold foldb.6 — Cupredoxin-like
Superfamily Superfamily superfamilyb.6.1 — Cupredoxins
Family Family familyb.6.1.1 — Plastocyanin/azurin-like

CATH v4.4 (1 domains)

Domain ID domain_id3np4A00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily420 — Cupredoxins - blue copper proteins

8. Citations (1)

9. Files and Curves (10)